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Conserved domains on  [gi|639297970|ref|WP_024589179|]
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MULTISPECIES: PRC-barrel domain-containing protein [unclassified Pseudoalteromonas]

Protein Classification

YrrD and PRC domain-containing protein( domain architecture ID 11975657)

YrrD and PRC domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YrrD super family cl28705
Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];
2-81 1.45e-05

Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];


The actual alignment was detected with superfamily member COG3881:

Pssm-ID: 443089 [Multi-domain]  Cd Length: 161  Bit Score: 44.11  E-value: 1.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 639297970   2 LHTLNDLKNLA-IDASDG-DIGLTKDFYFDDKHWVIRYLVVETGTWLLSKKILL---------------SPISIKKLNQK 64
Cdd:COG3881    1 MRKSSELIGLPvISLETGkQLGRVKDLVFDPEEGRVAGFLVESGGLFKGAKVIPfedvvsigedavtvdSSSAIEKLEEL 80

                         90
                 ....*....|....*..
gi 639297970  65 PQTLTVTISRKQVKNCP 81
Cdd:COG3881   81 PELNELLKKKIDLIGKK 97
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 168-226 6.76e-03

PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.


:

Pssm-ID: 398765  Cd Length: 78  Bit Score: 34.57  E-value: 6.76e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 639297970  168 LDVIDGD---LGHLQGMLIDTDTWEIRYLIINTSNWWLGHLVLI--APKWIKEVSWptsKIYVD 226
Cdd:pfam05239  12 LEVYTEDgekLGKVKDVVIDEGEGRVRYLVVSVGGFLGGKEVLIpfDKLNVKLGKD---RIIVD 72
 
Name Accession Description Interval E-value
YrrD COG3881
Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];
2-81 1.45e-05

Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];


Pssm-ID: 443089 [Multi-domain]  Cd Length: 161  Bit Score: 44.11  E-value: 1.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 639297970   2 LHTLNDLKNLA-IDASDG-DIGLTKDFYFDDKHWVIRYLVVETGTWLLSKKILL---------------SPISIKKLNQK 64
Cdd:COG3881    1 MRKSSELIGLPvISLETGkQLGRVKDLVFDPEEGRVAGFLVESGGLFKGAKVIPfedvvsigedavtvdSSSAIEKLEEL 80

                         90
                 ....*....|....*..
gi 639297970  65 PQTLTVTISRKQVKNCP 81
Cdd:COG3881   81 PELNELLKKKIDLIGKK 97
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 5-77 9.85e-05

PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.


Pssm-ID: 398765  Cd Length: 78  Bit Score: 39.97  E-value: 9.85e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 639297970    5 LNDLKNLAIDASDGD-IGLTKDFYFDDKHWVIRYLVVETGTWLLSKKILLsPISIKKLNQKPQTLTVTISRKQV 77
Cdd:pfam05239   6 ASDLIGLEVYTEDGEkLGKVKDVVIDEGEGRVRYLVVSVGGFLGGKEVLI-PFDKLNVKLGKDRIIVDPPKELL 78
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 168-226 6.76e-03

PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.


Pssm-ID: 398765  Cd Length: 78  Bit Score: 34.57  E-value: 6.76e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 639297970  168 LDVIDGD---LGHLQGMLIDTDTWEIRYLIINTSNWWLGHLVLI--APKWIKEVSWptsKIYVD 226
Cdd:pfam05239  12 LEVYTEDgekLGKVKDVVIDEGEGRVRYLVVSVGGFLGGKEVLIpfDKLNVKLGKD---RIIVD 72
 
Name Accession Description Interval E-value
YrrD COG3881
Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];
2-81 1.45e-05

Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];


Pssm-ID: 443089 [Multi-domain]  Cd Length: 161  Bit Score: 44.11  E-value: 1.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 639297970   2 LHTLNDLKNLA-IDASDG-DIGLTKDFYFDDKHWVIRYLVVETGTWLLSKKILL---------------SPISIKKLNQK 64
Cdd:COG3881    1 MRKSSELIGLPvISLETGkQLGRVKDLVFDPEEGRVAGFLVESGGLFKGAKVIPfedvvsigedavtvdSSSAIEKLEEL 80

                         90
                 ....*....|....*..
gi 639297970  65 PQTLTVTISRKQVKNCP 81
Cdd:COG3881   81 PELNELLKKKIDLIGKK 97
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 5-77 9.85e-05

PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.


Pssm-ID: 398765  Cd Length: 78  Bit Score: 39.97  E-value: 9.85e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 639297970    5 LNDLKNLAIDASDGD-IGLTKDFYFDDKHWVIRYLVVETGTWLLSKKILLsPISIKKLNQKPQTLTVTISRKQV 77
Cdd:pfam05239   6 ASDLIGLEVYTEDGEkLGKVKDVVIDEGEGRVRYLVVSVGGFLGGKEVLI-PFDKLNVKLGKDRIIVDPPKELL 78
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 168-226 6.76e-03

PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.


Pssm-ID: 398765  Cd Length: 78  Bit Score: 34.57  E-value: 6.76e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 639297970  168 LDVIDGD---LGHLQGMLIDTDTWEIRYLIINTSNWWLGHLVLI--APKWIKEVSWptsKIYVD 226
Cdd:pfam05239  12 LEVYTEDgekLGKVKDVVIDEGEGRVRYLVVSVGGFLGGKEVLIpfDKLNVKLGKD---RIIVD 72
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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